﻿\chapter{CONCLUSION AND FUTURE WORK}

\section{Future Work}
\subsection{Improvements to Biocompute}

Switching BLAST to an all or mostly work-queue friendly thing would be nice.  Tarring databases, longer-term caching capabilities on work\_queue\_workers
and galaxy-compatible modules.

\subsection{Future Rare Codon Work}

Per position probabilities--fairly straightforward modification to existing permutation code.  Implementation in C for performance improvements.
Use of a better proxy for translation rate than \%min-max.  Inclusion of other factors that might effect translation rate, like the weird motifs.

\section{Conclusions}

We hope to have provided a comprehensive overview of the common challenges in bioinformatics, ranging from collaboration and resource sharing to 
computation to novel algorithm development.  We describe general principles aiding in the design of bioinformatics web portals and distributed
pipelines.  We show implementations exemplifying these principles, and describe solutions to commonly encountered challenges.  Finally, we present
novel bioinformatics research applying these principles to achieve meaningful biological results from large scale computations.
